HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
All_genes_pseudobulk_Healthy_4wk_6wk<p dir="ltr">Pseudobulk genome-wide transcription from whole adult mouse lung. Three groups: healthy (no treatment), 4wkHDM (after 4 weeks of intranasal house dust mite exposure), and 6wkHDM (after 6 weeks of intranasal house dust mite exposure).</p>
ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
Supplementary data for transcriptomic analysis of suicide in bipolar disorder<p dir="ltr">This repository contains supplementary datasets associated with the manuscript, including differential gene expression (DEG) results, Gene Ontology biological process (GO BP) enrichment analyses, gene lists for WGCNA modules, and functional annotations of co-expression modules.</p>
ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
Data and code for metabolic decompensation under co-occurring thermal-hypoxic stress in Pacific oysters<p dir="ltr">Processed data and analysis workflows supporting the study “Metabolic decompensation under co-occurring thermal-hypoxic stress: ESRRA alternative splicing drives non-additive oyster responses to coastal compound climate stress.” The package includes environmental temperature, salinity, and dissolved-oxygen data for oyster-associated shallow habitats (1995–2025), RNA-seq and ATAC-seq m
ZivaHub + Deakin Research Online + DMU Figshare2026 · RNA sequencing
Bioinformatics-driven insights into the role of cathepsins in tumour biology<div>Cysteine cathepsins are proteolytic enzymes implicated in cancer progression through their involvement in tumour growth, extracellular matrix (ECM) remodelling, and modulation of the tumour microenvironment (TME). This thesis examines the molecular roles of two cysteine cathepsins, cathepsin S (CTSS) and cathepsin V (CTSV), with a focus on their relevance to breast cancer biology and disease
ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
Cell death-inducing effectors in the latent necrotrophic pathogen Cercospora zeina of maize<p dir="ltr">The datasets underpin a PhD study titled "Transcriptomics and structural phylogenetics reveals cell death-inducing effectors in the latent necrotrophic pathogen Cercospora zeina of maize." This fungal pathogen enters the stomata, developing asymptomatically, without producing haustoria-like structures for up to 28 days before symptoms develop. RNA sequencing was used to characterise t
ZivaHub + Deakin Research Online + DMU Figshare2026 · RNA sequencing
Impact of immune status and clinical outcomes in oropharyngeal cancerBackground: Oropharyngeal squamous cell carcinoma (OPSCC) is a biologically and clinically heterogeneous disease, known for having distinct molecular and prognostic features primarily driven by smoking, alcohol and human papillomavirus (HPV) infection. The immune system has emerged as a critical factor influencing cancer prognosis and survival. However, reliable, scalable, and interpretable approa
ZivaHub + Deakin Research Online + DMU Figshare2026 · RNA sequencing
Simplifying transcriptomic profiling and molecular subtyping of colorectal cancerWe hypothesised that the use of a high-throughput RNA-sequencing (RNA-seq) technology paired with an easy-to-use data analysis application could open the field of transcriptomic subtyping to a broader user base. TempO-Seq is particularly amenable to clinically relevant samples such as FFPE and remains an extremely high throughput sequencing technology. This thesis investigates the utility of the T
ZivaHub + Deakin Research Online + DMU Figshare + UCL Research Data Repository2026 · RNA sequencing · unknown
Implementation of global miRNA biomarker discovery in human plasmaPrecision medicine is improving health outcomes by tailoring patient care to specific individuals. The improved patient stratification needed to support further implementation of precision medicine will require developments in molecular diagnostics and identification of novel biomarkers. Small non-coding RNAs, specifically miRNAs, have been shown to exist extracellularly and are stable in biofluid
ZivaHub + Deakin Research Online + DMU Figshare + UCL Research Data Repository2026 · RNA sequencing · unknown
Androgen receptor mediated gene regulatory networks in prostate cancerProstate cancer (PCa) is the most common cancer diagnosed in men. The androgen receptor (AR) is a well-studied master regulator of PCa. Patients with metastatic PCa develop resistance to AR-targeted therapies, which can arise in part from tumour microenvironment signaling. AR activity is often maintained in treatment-resistant metastatic PCa alongside other important changes including epithelial-t
ZivaHub + Deakin Research Online + DMU Figshare + UCL Research Data Repository2026 · RNA sequencing · unknown
Characterisation of endothelial cell metabolic plasticity and vascular remodelling in the retinaDiabetic retinopathy (DR) is the most frequently occurring microvascular complication of diabetes mellitus, where the later stages of the disease are often is chaemia driven which can result in severe vision loss. A key component cell of the retinal neurovascular unit is the vascular endothelium, which is significantly impacted by the diabetic milieu. It has now been established that the endotheli
ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
KEGG Pathway Enrichment Analysis of Differentially Expressed Genes across Microalgal Species<p dir="ltr">This dataset contains KEGG pathway enrichment analysis results derived from differentially expressed genes (DEGs) identified in RNA-seq datasets from multiple microalgal species.<br>KEGG enrichment analyses were performed separately for up- and down-regulated gene sets for each species and experimental comparison.</p><p dir="ltr">Each file includes enriched KEGG pathways with associat
ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
<b>Supplementary Data S3. Differential alternative-splicing events retained across the analysed microalgal datasets.</b><p dir="ltr"> The workbook reports the 186 significant local splicing variation events identified in 167 genes across <i>Chlorella ohadii, Skeletonema marinoi,</i> and <i>Tetradesmus obliquus</i>. For each event, species, experimental comparison, gene and LSV identifiers, functional annotation, splicing-event type, maximum |ΔPSI|, probability of change, genomic location, functional tier and catego
Data.gov.ie2026 · RNA sequencing · unknown
The effect of diet and breed on global gene expression profiles of animals divergent for RFIZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
<b>Supplementary Data S2. Underlying data and summary tables for GO and KEGG functional enrichment analyses.</b><p dir="ltr">The workbook contains all significant GO terms and KEGG pathways identified separately for each species, experimental comparison, and regulation direction, together with their enrichment statistics and assignment of contributing genes to the T1–T3 functional tiers. Additional sheets summarise the overall tier composition of GO and KEGG enrichment, the gene-level overlap between the tw
ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
GO Enrichment Analysis of Differentially Expressed Genes across 5 Microalgal Species<p dir="ltr">This dataset contains Gene Ontology (GO) enrichment analysis results derived from differentially expressed genes (DEGs) identified in RNA-seq datasets from five microalgal species: <i>Chlorella ohadii, Coccomyxa subellipsoidea, Seminavis robusta, Skeletonema marinoi</i>, and <i>Thalassiosira pseudonana</i>.<br>GO enrichment analyses were performed separately for up- and down-regulated
ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
<b>Supplementary Data S4. Complete results of the WGCNA co-expression network analysis for the three datasets with at least fifteen samples.</b><p dir="ltr">The workbook reports network parameters for Thalassiosira pseudonana, Seminavis robusta, and Tetradesmus obliquus; module-level statistics for all detected modules and the subset classified as key modules; module–trait correlations and permutation-based eigengene tests; annotated tier-specific hub genes with module membership (kME) values; and the cross-species recurrence of CO₂-relat
ZivaHub + Deakin Research Online + DMU Figshare + HKU DataHub + Swinburne Figshare + DaYta Ya Rona + SUNScholarData + figshare + Loughborough Research Repository + GRANTS Data + UP Research Data Repository2026 · RNA sequencing
<b>Supplementary Data S1. </b><b>Gene-level annotation and functional classification of CO₂-related differentially expressed genes.</b><p dir="ltr">Gene-level information is reported for the 22 up- and down-regulated DEG lists, including species, BioProject, experimental comparison, regulation direction, gene identifier, functional annotation, log₂ fold change, adjusted p-value, functional tier (T1–T3), and assigned functional category.</p>
ZivaHub + HKU DataHub + figshare + Loughborough Research Repository + UP Research Data Repository2026 · RNA sequencing
Differential expression results for behavioural profile and mitochondrial lineage in <i>Salamandra salamandra</i> larvae<p dir="ltr">This dataset contains the complete annotated differential-expression results used in the study “Transcriptomic correlates of dispersal-related behavioural profiles in <i>Salamandra salamandra</i> larvae across a mitochondrial contact zone”.</p><p dir="ltr">Differential expression was analysed at the Corset-cluster level using RNA-seq data from ten <i>Salamandra salamandra</i> larvae c
ZivaHub + HKU DataHub + DaYta Ya Rona + figshare + Loughborough Research Repository + UP Research Data Repository2026 · RNA sequencing
Differentially expressed genes in response to BN-treatment<p dir="ltr"><a href="https://figshare.com/account/articles/30597953" target="_blank">Differentially expressed genes in response to BN-treatment</a></p>
ZivaHub2026 · Microscopy
4‑Biphenylboronic Acid Exerts Antifungal Activity against Neopestalotiopsis ellipsospora via Dual Targeting of Plasma Membrane Integrity and Cell Wall BiogenesisNeopestalotiopsis ellipsospora causes tea leaf spots, reducing yield and processed tea quality and resulting in economic losses. This study investigated the antifungal activity and mechanism of 4-biphenylboronic acid using mycelial growth inhibition assays, enzymatic analyses, electron microscopy, and RNA sequencing. The compound showed strong antifungal activity against N. ellipsospora with an EC
NCBI GEO2026 · Excel spreadsheet · 14 samples
Novel B cell deficiency [CITE-seq]We identified 5 patients from two families with a defect in antibody production without a known inborn error of immunity.
NCBI GEO2026 · Excel spreadsheet · 35 samples
BACH2-integrated proviruses reprogram CD4+ T cells through LTR exaptation in HIV-1 infectionPeople living with HIV (PLWH) on antiretroviral therapy (ART) accumulate proviral sequences in genomes of often clonally expanded CD4+ HIV-1 target cells. Viral-derived DNA is preferentially found at distinct genomic loci suggesting a selective process driven by integration site-specific crosstalk between viral and host sequences. Focusing on one of the most prominent selected integration loci, th
HKU DataHub + figshare + Loughborough Research Repository + UP Research Data Repository2026 · RNA sequencing
Significant Alternative Splicing Events Identified by MAJIQ/VOILA in 3 Microalgal Species<p dir="ltr">This dataset contains significant alternative splicing events identified from RNA-seq data in three microalgal species: <i>Chlorella ohadii</i>, <i>Skeletonema marinoi</i>, and <i>Tetradesmus obliquus</i>.<br>Alternative splicing analysis was performed using the MAJIQ framework, and significant splicing events were extracted from VOILA output files.<br>For each species, the dataset in
NCBI GEO2026 · RNA sequencing · 9 samples
Tissue-specific Viscoelastic Bioink with Superelastic Behavior for Bioprinting of Injectable Centimeter-scale ArchitecturesThis work explores tissue-specific biomimetic functional materials and investigates the regulatory mechanisms of materials on cells, offering a highly promising solution for the manufacturing of centimeter-sized injectable liver tissue.
NCBI GEO2026 · RNA sequencing · 18 samples
Methylation Mesa define functional regulatory elements for targeted gene activation [patients]DNA methylation regulates transcription, yet the demethylation of canonical elements like promoter CpG islands exhibits inconsistent correlations with gene activation. We hypothesized that causal regulatory elements are defined by biophysical hypersensitivity. Profiling 24 whole-genome bisulfite sequencing samples across diverse human and murine models, we identified Methylation Mesa, narrow (~45-